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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCTTCTATTCTATTGGGTGGTTTTGTTTACAGTCACAATGAAGCGACAGATTCTTCATATGATAAAATACAGATATGTTCCATTCTCCTTCGGGAAGCAGgtaagcaaaatattttaatcattcagttatttgttagttgtactacattcagttatttgttagttgtactagtcagtgatctatcttttgtcatgttcttacgttggtacttggttcattttgtcag

Basic information

species Oryza sativa
transcript LOC_Os08g21760.1
intron # 2
splice site 5'
intron type U2

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|86596101|gb|CI266604.1|CI266604
EST:     TACAGATATGTTCCATTCTCCTTCGGGAAGCAG                         CGTTATAATGGAAAAAGGGTAGCTTCTGCTGATGATCTCACCCTTCCCAAG
genomic: TACAGATATGTTCCATTCTCCTTCGGGAAGCAGgtaagcaaaa ... attttgtcagCGTTATAATGGAAAAAGGGTAGCTTCTGCTGATGATCTCACCCTTCCCAAG
EST: gi|29642440|gb|CB647447.1|CB647447
EST:     TTCTTCATATGATAAAATACAGATATGTTCCATTCTCCTTCGGGAAGCAG                         CGTTATAATGGAAAAAGGGTAGCTTCTGCTGATGATCTCACCCTTCCCAAG
genomic: TTCTTCATATGATAAAATACAGATATGTTCCATTCTCCTTCGGGAAGCAGgtaagcaaaa ... attttgtcagCGTTATAATGGAAAAAGGGTAGCTTCTGCTGATGATCTCACCCTTCCCAAG
EST: gi|27546874|gb|CA767281.2|CA767281
EST:     TTCTTCATATGATAAAATACAGATATGTTCCATTCTCCTTCGGGAAGCAG                         CGTTATAATGGAAAAAGGGTAGCTTCTGCTGATGATCTCACCCTTCCCAAG
genomic: TTCTTCATATGATAAAATACAGATATGTTCCATTCTCCTTCGGGAAGCAGgtaagcaaaa ... attttgtcagCGTTATAATGGAAAAAGGGTAGCTTCTGCTGATGATCTCACCCTTCCCAAG
EST: gi|58601991|gb|CK012519.1|CK012519
EST:     TTCTTCATATGATAAAATACAGATATGTTCCATTCTCCTTCGGGAAGCAG                         CGTTATAATGGAAAAAGGGTAGCTTCTGCTGATGATCTCACCCTTCCCAAG
genomic: TTCTTCATATGATAAAATACAGATATGTTCCATTCTCCTTCGGGAAGCAGgtaagcaaaa ... attttgtcagCGTTATAATGGAAAAAGGGTAGCTTCTGCTGATGATCTCACCCTTCCCAAG
EST: gi|88485670|gb|CI422941.1|CI422941
EST:     TCTTCATATGATAAGATACAGATATGTTCCATTCTCCTT-GGGGAGCAG                         CGTTATAATGGGAAAAGGGTAGCTTCTGCTGATGATCTCACCCTTCCCAAG
genomic: TCTTCATATGATAAAATACAGATATGTTCCATTCTCCTTCGGGAAGCAGgtaagcaaaa ... attttgtcagCGTTATAATGGAAAAAGGGTAGCTTCTGCTGATGATCTCACCCTTCCCAAG

RNA-Seq data


 ATGC   Supported by RNA-Seq exonic block that spans over the splice site

 atgs   Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.


Found data for 1 RNA-Seqlibrary.


Block sizes: 75 (upstream exon), 56 (downstream exon)
Score: 23

TCTTCTATTCTATTGGGTGGTTTTGTTTACAGTCACAATGAAGCGACAGATTCTTCATATGATAAAATACAGATATGTTCCATTCTCCTTCGGGAAGCAGgtaagcaaaa ... attttgtcagCGTTATAATGGAAAAAGGGTAGCTTCTGCTGATGATCTCACCCTTCCCAAGGATTAAGTACTTGGGATTCTGTAACTGCAAAATGTGCTTTTAGTTACTA




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